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Structure of Nal1 indica cultivar IR64, construct 88-458
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 0.1M Sodium Hepes-MOPS
0.1M Morpheus Carboxylic acids
37.5% MPD_P1K_P3350
12% 1,6-hexanediol
Crystal Properties Matthews coefficient Solvent content 2.43 49.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.279 α = 90 b = 103.735 β = 90 c = 143.471 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2019-06-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.978530 SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.148 84.063 92.5 0.087 0.09 0.025 0.999 22 13 47522 49.98
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.148 2.185 70.6 1.545 1.625 0.493 0.499 1.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 2.15 39.64 1.35 47497 2321 72.79 0.1957 0.1938 0.195 0.2346 0.2356 61.56
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 14.4831 f_angle_d 0.7726 f_chiral_restr 0.0511 f_plane_restr 0.0036 f_bond_d 0.0029
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7936 Nucleic Acid Atoms Solvent Atoms 99 Heterogen Atoms 128
Software Software Software Name Purpose PHENIX refinement PHENIX refinement XDS data reduction Aimless data scaling AutoSol phasing